New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 2587005	49 (0.860)	5 (0.090)	5/270	7.3	9.0%	coding (1275/1701 nt)	narQ	sensory histidine kinase in two‑component regulatory system with NarP
	?	NC_000913_3_pae_tpiA	= 2587014	55 (1.020)					coding (1284/1701 nt)	narQ	sensory histidine kinase in two‑component regulatory system with NarP
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TCCAGTTGACGTTACTGAAGCGTTCGATACCGGAAGATAACGCCACCGCACAAAGTATCATGGCCGATTTTTCCCAGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCAACCCTGGCACTGGATGCGCAAATGCAGGTGCATTTGTTGCAAATTATTCGCGAAGC  >  NC_000913_3_pae_tpiA/2586875‑2587160                                                                                                                                            |                                                                                                                                                   tCCAGTTGACGTTACTGAAGCGTTCGATACCGGAAGATAACGCCACCGCACAAAGTATCATGGCCGATTTTTCCCAGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTAATTTCCGACTGACGCTGCAGCAGGCGGAt                                                                                                                                           >  1:776852/1‑149 (MQ=255)   cAGTTGACGTTACTGAAGCGTTCGATACCGGAAGATAACGCCACCGCACAAAGTATCATGGCCGATTTTTCCCAGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGAtct                                                                                                                                         >  1:319143/1‑149 (MQ=255)      ttGACGTTACTGAAGCGTTCGATACCGGAAGATAACGCCACCGCACAAAGTATCATGGCCGATTTTTCCCAGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTccc                                                                                                                                      <  1:429443/149‑1 (MQ=255)           gTTACTGAAGCGTTCGATACCGGAAGATAACGCCACCGCACAAAGTATCATGGCCGATTTTTCCCAGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCg                                                                                                                                 >  1:358219/1‑149 (MQ=255)            ttACTGAAGCGTTCGATACCGGAAGATAACGCCACCGCACAAAGTATCATGGCTGATTTTTCCCAGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCCGACGCTGCAGCAGGCGGATCTCCCCTCCGc                                                                                                                                >  1:666169/1‑149 (MQ=255)                  caGCGTTCCCTTCCGGAAGATAACGCCACCGCAAAAATTATCATGGCCGATTTTTCCCAGGAGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAg                                                                                                                          <  1:68389/148‑1 (MQ=255)                  aaGCGTTCGATACCGGAAGATAACGCCACCGCACAAAGTATCATGGCCGATTTTTCCCAGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGATGCCGCAGGCGGATCTCCCCTCCGCATTgct                                                                                                                          >  1:70975/1‑147 (MQ=255)                    gCGTTCGATACCGGAAGATAACGCCACCGCACAAAGTATCATGGCCGATTTTTCCCAGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAggg                                                                                                                        >  2:513721/1‑149 (MQ=255)                        ttgATACCGGAAGATAACGCCATCGCACAATGTATCATGGCCGATTTTTCCCCGGCGTTGACTGATGCTTAGCGGGCGTTACTCGCGCTGTTGACTACTTTCCGCCTGACGTTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAAt                                                                                                                    <  2:1361/147‑1 (MQ=255)                            tgacGGAAGGTAACGCCGCGCGACAAAGTATCGTGGCGGATTTTGCCGAGGCGGTGAATGATTCTTATCGGCAGTTACGTGAGCTGTTGTCTACTTTCCGTCTGTCGCTGCAGCAGGCGGATCTCCCCTACGCATTGAGGGAAATGCTg                                                                                                                <  2:387288/146‑1 (MQ=255)                               cGGAAGATAACGCCACCGCACAAAGTATCATGGCCGATTTTTCCCAGGCGGTGAATGATGCTTATCGGCAGTTACGCGGGCTGTTGACTACGTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGCAt                                                                                                             >  1:782519/1‑149 (MQ=255)                                        aCGCCACCGCACAGAGTATCATGGCCGATTTTTCCCAGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACaa                                                                                                    >  2:375854/1‑149 (MQ=255)                                        aCGCCACCGCACAAAGTATCATGGCCGATTTTTCCCAGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACaa                                                                                                    <  2:356526/149‑1 (MQ=255)                                         cGCCACCGCACAAAGTATCATGGCCGATTTTTCCCAGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGCTACGTTACaaa                                                                                                   >  1:838694/1‑149 (MQ=255)                                          gCCACCGCACAAAGTATCATGGCCGATTTTTCCCAGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGCTACGTACCaaac                                                                                                  >  2:391553/1‑148 (MQ=255)                                              ccGCACAAAGTATCATGGCCGATTTTTCCCAGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCGGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCaa                                                                                              >  1:842293/1‑149 (MQ=255)                                                gCACAAAGTATCATGGCCGATTTTTCCCAGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCGCCGCCTTGAGGGAAATGCTGGATACGTTACAAAATCAAAc                                                                                            >  1:454828/1‑149 (MQ=255)                                                 cacaAAGTATCATGGCCGATTTTTCCCAGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGAtctc                                                                                                                                        <  1:964500/104‑1 (MQ=255)                                                 cacaAAGTATCATGGCCGATTTTTCCCAGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGAtctc                                                                                                                                        >  2:964500/1‑104 (MQ=255)                                                        tATCATGGCCGATTTTTCCCAGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCa                                                                                    >  1:760447/1‑149 (MQ=255)                                                            aTGGCCGATTTTTCCCAGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCGGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGGGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCaaagt                                                                                >  2:520333/1‑147 (MQ=255)                                                                 cGATTTTGCCCAGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGAccc                                                                           <  2:239828/149‑1 (MQ=255)                                                                  gATTTTTCCCAGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCCACGACGGAACTGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGAACCt                                                                          >  1:443847/1‑149 (MQ=255)                                                                  gATTTTTCCCAGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCGGCGCCAAACTGAcctt                                                                          >  1:35408/1‑147 (MQ=255)                                                                         cccAGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTGGACTCCTTTCCGCCTGACGCTGCAGCAGGCGCATCTCCCCTCCGCATTGGTGGGAATGCTGGATACGTTACACAATCAACCCAGCCCCAAACTGACCCTCCACTGc                                                                   >  2:185710/1‑149 (MQ=255)                                                                            aGGCGTTTAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCGTTGTGGGAAATGCTGGTTACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGt                                                                <  1:144590/149‑1 (MQ=255)                                                                            aGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCCTTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCTCCAACCTGACCCTCCACTGCCGt                                                                >  2:383951/1‑149 (MQ=255)                                                                               cGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTg                                                             <  1:974242/149‑1 (MQ=255)                                                                                gTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCACACTGACCCTCGACTGCCGTCTGc                                                            >  1:495562/1‑149 (MQ=255)                                                                                gTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTCACCCTCGACTGCCGTCtcc                                                            >  1:723786/1‑147 (MQ=255)                                                                                      tgatcCTTATCGGCATGTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCAATGAGTGAAAGGCTGGATACGTTACAAATTCACACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCagggt                                                      <  1:140615/149‑5 (MQ=255)                                                                                            tgaTCGGCAGTTACGCGAGCTGGTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCAACCCTGGCAc                                                <  1:560530/147‑1 (MQ=255)                                                                                                 ggCCGTTACGCGAGCTGTTGACTACTTTCCGTCCGACGCTGCAGCAGGCGGATCTCCCATCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCAACCCTGGCACTGGAt                                           <  1:466250/149‑1 (MQ=255)                                                                                                          gcgAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCAACCCTGGCACTGGATGCGCAAATg                                  >  1:683137/1‑149 (MQ=255)                                                                                                           cgAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCAACCCTGGCACTGGATGCGCAAATGc                                 <  2:630737/149‑1 (MQ=255)                                                                                                           cgAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCAACCCTGGCACTGGATGCGCAAATGc                                 >  1:273454/1‑149 (MQ=255)                                                                                                             aGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCAACCCTGGCACTGGATGCGCAAATGCAg                               <  1:375854/149‑1 (MQ=255)                                                                                                                tGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCAACCCTGGCACTGGATGCGCAAATGCAGGTg                            >  2:1004934/1‑149 (MQ=255)                                                                                                                 gTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCAACCCTGGCACTGGATGCGCAAATGCAGGTGc                           <  2:760447/149‑1 (MQ=255)                                                                                                                  ttGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCAACCCTGGCACTGGATGCGCAAATGCAGGCGCa                          >  1:359448/1‑149 (MQ=255)                                                                                                                    gACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCAACCCTGTCACGGGATGGGCAAATGCGGGGGCAtt                        >  1:922336/1‑149 (MQ=255)                                                                                                                       tactTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCAACCCTGGCACTGGATGCGCAAATGCAGGTGCATttgt                     >  1:423081/1‑149 (MQ=255)                                                                                                                          tttCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCAACCCTGGCACTGGATGCGGAAAGGCAGGTGCAGTTGTTGc                  >  1:520243/1‑149 (MQ=255)                                                                                                                            tCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCAACCCTGGCACTGGATGCGCAAATGCAGGTGCATTTGTTGCaa                >  2:642039/1‑149 (MQ=255)                                                                                                                             ccgcaggACGCTGCAGCAGGCGGATATCCACTACGCATTGAGGGAAATGCTGGATACGCTACACAATCCAACCCGAGCCAAACTGACCCTCCACTGCCGTCTGCCAACGATGGCACTGGATGCGCAAATGCAGGTGCAGTAGTTGCaaa               >  2:754398/7‑149 (MQ=255)                                                                                                                             ccGCCTGACGCTGCAGCCGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCAACCCTGGCACTGGATGCGCAAATGCAGGTGCATTTGTTGCaaa               <  1:132347/149‑1 (MQ=255)                                                                                                                             ccGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCAACCCTGGCACTGGATGCGCAAATGCAGGTGCATTTGTTGCaaa               <  1:642039/149‑1 (MQ=255)                                                                                                                             ccGCCTGACGCTGCAGCAGCCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCAACCCTGGCACTGGATGCGCAAATGCAGGTGCATTTGTTGCaaa               <  1:132346/149‑1 (MQ=255)                                                                                                                                  tGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCAACCCTGGCACTGGATGCGCAAATGCAGGTGCATTTGTTGCAAattatt          <  1:1004934/149‑1 (MQ=255)                                                                                                                                    tcGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCAACCCTGGCACTGGATGCGCAAATGCAGGTGCATTTGTTGCAAATTATTcg        <  2:497307/148‑1 (MQ=255)                                                                                                                                     cGCTGGAGCAGGCTGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCAACCCTGGCACTGGATGCGCAAATGCAGGTGCATTTGTTGCAAATTATTcgc       <  1:939354/149‑1 (MQ=255)                                                                                                                                      gCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAGGTGCAGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCAACCCTGGCACTGGATGCGCAAATGCAGGTGCATTTGTTGCAAATTATTcgca      >  1:497307/1‑148 (MQ=255)                                                                                                                                      gCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCAACCCTGGCACTGGATGCGCAAATGCAGGTGCATTTGTTGCAAATTATTcgcg      >  1:261461/1‑149 (MQ=255)                                                                                                                                      gCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTATGCCAACCCTGGCACTGGATGCGCAAATGCAGGTGCATTTGTTGCAAATTATTcgcg      >  2:396547/1‑149 (MQ=255)                                                                                                                                          aagcagGCGGATGTCCCGACTGGATTGAGGGAAAGTCTGGATATGTTACAAAAGCAAGCCAGCGCCAATCTGACCTTCGACTGCCGTCTGCCTACCCTGGCACTGGATGCTCAAATGCAGGTGCATTTGTTGCAAATTATTCGGGAAGc  <  2:21607/148‑1 (MQ=255)                                                                                                                                            |                                                                                                                                                   TCCAGTTGACGTTACTGAAGCGTTCGATACCGGAAGATAACGCCACCGCACAAAGTATCATGGCCGATTTTTCCCAGGCGTTGAATGATGCTTATCGGCAGTTACGCGAGCTGTTGACTACTTTCCGCCTGACGCTGCAGCAGGCGGATCTCCCCTCCGCATTGAGGGAAATGCTGGATACGTTACAAAATCAAACCAGCGCCAAACTGACCCTCGACTGCCGTCTGCCAACCCTGGCACTGGATGCGCAAATGCAGGTGCATTTGTTGCAAATTATTCGCGAAGC  >  NC_000913_3_pae_tpiA/2586875‑2587160

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.